The output of Adobe 6.0 to HTML 3.2 isn't all that it is cracked up to be. Try it on a very complicated PDF, and take a look at the results.
The first page or two might look good, but when you get down to page 300, 500, 800, and later... things get really ugly. It starts to disjoint words, text, reflows paragraphs wrong, and lots of other weird things. It also seems to ignore some graphics in complicated PDF documents, claiming that they are missing required attribute (which I find odd, since Adobe Acrobat created the original PDF in the first place!)
The best approach is to use a combination of tools, and then go in and hand edit the whole thing back again to a usable format for reading on a PDA or handheld device.